Multiple sequence alignment - TraesCS4D01G229400
BLAST Results
Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.
qseqid | sseqid | percentage.identical | alignment.length | no.mismatch | no.gap.openings | qstart | qend | sstart | send | evalue | bitscore | |
---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS4D01G229400 | chr4D | 100.000 | 7772 | 0 | 0 | 1 | 7772 | 389232081 | 389224310 | 0.000000e+00 | 14353.0 |
1 | TraesCS4D01G229400 | chr4D | 82.210 | 371 | 46 | 13 | 1 | 365 | 362071202 | 362070846 | 1.270000e-77 | 302.0 |
2 | TraesCS4D01G229400 | chr4D | 94.444 | 54 | 2 | 1 | 3147 | 3200 | 40845340 | 40845288 | 1.800000e-11 | 82.4 |
3 | TraesCS4D01G229400 | chr4A | 94.867 | 4909 | 137 | 25 | 2929 | 7772 | 70811798 | 70806940 | 0.000000e+00 | 7563.0 |
4 | TraesCS4D01G229400 | chr4A | 94.764 | 2292 | 63 | 11 | 637 | 2877 | 70814084 | 70811799 | 0.000000e+00 | 3515.0 |
5 | TraesCS4D01G229400 | chr4A | 86.405 | 662 | 49 | 21 | 2 | 653 | 70824724 | 70824094 | 0.000000e+00 | 686.0 |
6 | TraesCS4D01G229400 | chr4B | 94.767 | 4644 | 132 | 42 | 3192 | 7772 | 479155283 | 479150688 | 0.000000e+00 | 7127.0 |
7 | TraesCS4D01G229400 | chr4B | 93.583 | 1418 | 50 | 6 | 1524 | 2900 | 479157008 | 479155591 | 0.000000e+00 | 2076.0 |
8 | TraesCS4D01G229400 | chr4B | 92.894 | 1154 | 52 | 13 | 309 | 1437 | 479158683 | 479157535 | 0.000000e+00 | 1650.0 |
9 | TraesCS4D01G229400 | chr4B | 94.981 | 259 | 11 | 1 | 2900 | 3156 | 479155541 | 479155283 | 9.390000e-109 | 405.0 |
10 | TraesCS4D01G229400 | chr4B | 82.133 | 375 | 47 | 13 | 1 | 367 | 416449172 | 416449534 | 3.520000e-78 | 303.0 |
11 | TraesCS4D01G229400 | chr4B | 87.059 | 85 | 6 | 5 | 2850 | 2931 | 71592018 | 71591936 | 2.990000e-14 | 91.6 |
12 | TraesCS4D01G229400 | chr7A | 84.309 | 376 | 34 | 17 | 1 | 365 | 340853663 | 340853302 | 2.080000e-90 | 344.0 |
13 | TraesCS4D01G229400 | chr7B | 83.820 | 377 | 42 | 9 | 2 | 366 | 408819673 | 408820042 | 2.690000e-89 | 340.0 |
14 | TraesCS4D01G229400 | chr7B | 82.181 | 376 | 48 | 13 | 1 | 367 | 52497776 | 52497411 | 9.800000e-79 | 305.0 |
15 | TraesCS4D01G229400 | chr7B | 96.875 | 32 | 1 | 0 | 3174 | 3205 | 667483089 | 667483120 | 4.000000e-03 | 54.7 |
16 | TraesCS4D01G229400 | chr6B | 83.602 | 372 | 46 | 10 | 2 | 366 | 477782584 | 477782221 | 1.250000e-87 | 335.0 |
17 | TraesCS4D01G229400 | chr6B | 82.493 | 377 | 40 | 14 | 1 | 365 | 195199686 | 195200048 | 2.720000e-79 | 307.0 |
18 | TraesCS4D01G229400 | chr6B | 82.633 | 357 | 39 | 15 | 14 | 366 | 445467967 | 445467630 | 2.120000e-75 | 294.0 |
19 | TraesCS4D01G229400 | chr6B | 89.157 | 83 | 5 | 4 | 2866 | 2946 | 542928641 | 542928721 | 4.960000e-17 | 100.0 |
20 | TraesCS4D01G229400 | chr6B | 96.970 | 33 | 0 | 1 | 3147 | 3179 | 151608229 | 151608260 | 4.000000e-03 | 54.7 |
21 | TraesCS4D01G229400 | chr6B | 100.000 | 29 | 0 | 0 | 3147 | 3175 | 437482936 | 437482964 | 4.000000e-03 | 54.7 |
22 | TraesCS4D01G229400 | chr5D | 83.598 | 378 | 41 | 12 | 2 | 366 | 305434641 | 305435010 | 1.250000e-87 | 335.0 |
23 | TraesCS4D01G229400 | chr5B | 83.696 | 368 | 43 | 12 | 8 | 367 | 447317204 | 447316846 | 1.620000e-86 | 331.0 |
24 | TraesCS4D01G229400 | chr1D | 83.155 | 374 | 44 | 9 | 2 | 363 | 184826557 | 184826923 | 2.700000e-84 | 324.0 |
25 | TraesCS4D01G229400 | chr5A | 91.781 | 73 | 4 | 2 | 2874 | 2946 | 66844407 | 66844337 | 4.960000e-17 | 100.0 |
26 | TraesCS4D01G229400 | chr5A | 94.444 | 36 | 0 | 2 | 3147 | 3182 | 651563575 | 651563542 | 4.000000e-03 | 54.7 |
27 | TraesCS4D01G229400 | chr3A | 93.750 | 64 | 3 | 1 | 2882 | 2944 | 71515918 | 71515855 | 2.310000e-15 | 95.3 |
28 | TraesCS4D01G229400 | chr2D | 94.737 | 57 | 2 | 1 | 3147 | 3202 | 87242227 | 87242171 | 3.860000e-13 | 87.9 |
29 | TraesCS4D01G229400 | chr2D | 86.885 | 61 | 3 | 4 | 2875 | 2933 | 441531489 | 441531546 | 6.510000e-06 | 63.9 |
30 | TraesCS4D01G229400 | chr3D | 92.727 | 55 | 2 | 2 | 2886 | 2939 | 62783321 | 62783268 | 2.330000e-10 | 78.7 |
31 | TraesCS4D01G229400 | chr7D | 90.000 | 60 | 3 | 3 | 2872 | 2931 | 412016522 | 412016466 | 3.010000e-09 | 75.0 |
32 | TraesCS4D01G229400 | chr7D | 90.741 | 54 | 2 | 1 | 3147 | 3200 | 592075611 | 592075561 | 1.400000e-07 | 69.4 |
33 | TraesCS4D01G229400 | chr7D | 85.246 | 61 | 6 | 3 | 2871 | 2931 | 412016462 | 412016519 | 8.420000e-05 | 60.2 |
34 | TraesCS4D01G229400 | chr6A | 88.000 | 50 | 4 | 2 | 2853 | 2900 | 507116545 | 507116496 | 3.030000e-04 | 58.4 |
35 | TraesCS4D01G229400 | chr2B | 100.000 | 29 | 0 | 0 | 3147 | 3175 | 413450528 | 413450556 | 4.000000e-03 | 54.7 |
36 | TraesCS4D01G229400 | chr2B | 96.875 | 32 | 0 | 1 | 3147 | 3178 | 68226842 | 68226812 | 1.400000e-02 | 52.8 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS4D01G229400 | chr4D | 389224310 | 389232081 | 7771 | True | 14353.0 | 14353 | 100.00000 | 1 | 7772 | 1 | chr4D.!!$R3 | 7771 |
1 | TraesCS4D01G229400 | chr4A | 70806940 | 70814084 | 7144 | True | 5539.0 | 7563 | 94.81550 | 637 | 7772 | 2 | chr4A.!!$R2 | 7135 |
2 | TraesCS4D01G229400 | chr4A | 70824094 | 70824724 | 630 | True | 686.0 | 686 | 86.40500 | 2 | 653 | 1 | chr4A.!!$R1 | 651 |
3 | TraesCS4D01G229400 | chr4B | 479150688 | 479158683 | 7995 | True | 2814.5 | 7127 | 94.05625 | 309 | 7772 | 4 | chr4B.!!$R2 | 7463 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
470 | 475 | 0.318699 | CTTCCAGCGACGTCTCACAA | 60.319 | 55.000 | 14.70 | 0.00 | 0.00 | 3.33 | F |
1482 | 1513 | 0.322008 | CCCAGTCAGAAGCCTGGTTC | 60.322 | 60.000 | 5.09 | 0.91 | 45.61 | 3.62 | F |
1487 | 1518 | 1.531578 | GTCAGAAGCCTGGTTCGTTTC | 59.468 | 52.381 | 3.66 | 0.00 | 40.76 | 2.78 | F |
2118 | 2589 | 1.912043 | CAGGGAGGGAGAATCACAAGT | 59.088 | 52.381 | 0.00 | 0.00 | 45.06 | 3.16 | F |
3284 | 3849 | 1.562942 | TCTCTTCCTCCTGCATTGCAT | 59.437 | 47.619 | 12.53 | 0.00 | 38.13 | 3.96 | F |
3834 | 4400 | 1.407575 | GGTAGCAAAGGAGCCTCTTCC | 60.408 | 57.143 | 0.00 | 0.00 | 37.52 | 3.46 | F |
4276 | 4842 | 3.019564 | GCTAGCTTCATCACCCAACAAT | 58.980 | 45.455 | 7.70 | 0.00 | 0.00 | 2.71 | F |
5801 | 6374 | 0.179037 | GCAGCCAGCTCATACATCCA | 60.179 | 55.000 | 0.00 | 0.00 | 41.15 | 3.41 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2162 | 2633 | 0.042131 | TGTAAGGAGGGGACATCGGT | 59.958 | 55.000 | 0.00 | 0.00 | 0.00 | 4.69 | R |
3178 | 3743 | 2.065799 | ACTCCCTCTGTCCCAAAATGT | 58.934 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 | R |
3179 | 3744 | 2.887151 | ACTCCCTCTGTCCCAAAATG | 57.113 | 50.000 | 0.00 | 0.00 | 0.00 | 2.32 | R |
3813 | 4379 | 1.279271 | GAAGAGGCTCCTTTGCTACCA | 59.721 | 52.381 | 11.71 | 0.00 | 0.00 | 3.25 | R |
5003 | 5574 | 0.399454 | AGACATCAGCCACTGCAACT | 59.601 | 50.000 | 0.00 | 0.00 | 41.13 | 3.16 | R |
5460 | 6032 | 5.478332 | CAGGAATAAGGACCTCAAAAGCTTT | 59.522 | 40.000 | 5.69 | 5.69 | 33.91 | 3.51 | R |
6259 | 6832 | 2.217429 | TTCGGGCTGCAAAAAGAAAC | 57.783 | 45.000 | 0.50 | 0.00 | 0.00 | 2.78 | R |
7316 | 7960 | 0.971386 | GTTGACCCCGACCTCTGTTA | 59.029 | 55.000 | 0.00 | 0.00 | 0.00 | 2.41 | R |
All possible primersListed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
87 | 88 | 4.467438 | TGATGCCACTACTTCTGAAGATGA | 59.533 | 41.667 | 23.36 | 7.65 | 0.00 | 2.92 |
93 | 94 | 6.205658 | GCCACTACTTCTGAAGATGAACTTTT | 59.794 | 38.462 | 23.36 | 0.85 | 39.13 | 2.27 |
149 | 150 | 4.500205 | CCATTGCACCCACACATGATAATC | 60.500 | 45.833 | 0.00 | 0.00 | 0.00 | 1.75 |
239 | 242 | 5.261209 | TGATGGGTTGCATTTACTATTGC | 57.739 | 39.130 | 0.00 | 0.00 | 39.33 | 3.56 |
240 | 243 | 4.708909 | TGATGGGTTGCATTTACTATTGCA | 59.291 | 37.500 | 0.00 | 0.00 | 46.51 | 4.08 |
248 | 251 | 6.696441 | TGCATTTACTATTGCACATGATGA | 57.304 | 33.333 | 0.00 | 0.00 | 43.54 | 2.92 |
249 | 252 | 7.279750 | TGCATTTACTATTGCACATGATGAT | 57.720 | 32.000 | 0.00 | 0.00 | 43.54 | 2.45 |
250 | 253 | 7.718525 | TGCATTTACTATTGCACATGATGATT | 58.281 | 30.769 | 0.00 | 0.00 | 43.54 | 2.57 |
251 | 254 | 8.198778 | TGCATTTACTATTGCACATGATGATTT | 58.801 | 29.630 | 0.00 | 0.00 | 43.54 | 2.17 |
252 | 255 | 9.037737 | GCATTTACTATTGCACATGATGATTTT | 57.962 | 29.630 | 0.00 | 0.00 | 38.72 | 1.82 |
294 | 297 | 4.730657 | CTTGCTTCTCCTACTTGCAATTG | 58.269 | 43.478 | 0.00 | 0.00 | 41.76 | 2.32 |
295 | 298 | 2.489329 | TGCTTCTCCTACTTGCAATTGC | 59.511 | 45.455 | 23.69 | 23.69 | 42.50 | 3.56 |
328 | 331 | 2.814336 | GACAAGAACCACATCTTCACCC | 59.186 | 50.000 | 0.00 | 0.00 | 37.56 | 4.61 |
415 | 420 | 1.450848 | CATGACGGTGAGCCTGCAT | 60.451 | 57.895 | 0.00 | 0.00 | 0.00 | 3.96 |
467 | 472 | 0.803117 | CTACTTCCAGCGACGTCTCA | 59.197 | 55.000 | 14.70 | 0.00 | 0.00 | 3.27 |
470 | 475 | 0.318699 | CTTCCAGCGACGTCTCACAA | 60.319 | 55.000 | 14.70 | 0.00 | 0.00 | 3.33 |
522 | 527 | 2.175184 | CTTGCAGCACGGGAAACTCG | 62.175 | 60.000 | 0.00 | 0.00 | 0.00 | 4.18 |
533 | 538 | 1.298859 | GGAAACTCGCCAATCACGCT | 61.299 | 55.000 | 0.00 | 0.00 | 0.00 | 5.07 |
549 | 554 | 2.249309 | CTGCGTTGCAACACCGAG | 59.751 | 61.111 | 28.01 | 13.09 | 38.41 | 4.63 |
551 | 556 | 4.683334 | GCGTTGCAACACCGAGGC | 62.683 | 66.667 | 28.01 | 18.07 | 0.00 | 4.70 |
552 | 557 | 4.368808 | CGTTGCAACACCGAGGCG | 62.369 | 66.667 | 28.01 | 8.82 | 0.00 | 5.52 |
567 | 574 | 2.746375 | GGCGGGATGAGATGGTGGT | 61.746 | 63.158 | 0.00 | 0.00 | 0.00 | 4.16 |
590 | 597 | 1.286880 | GGACGCACATGCAGCTTTT | 59.713 | 52.632 | 4.49 | 0.00 | 42.21 | 2.27 |
591 | 598 | 1.005294 | GGACGCACATGCAGCTTTTG | 61.005 | 55.000 | 4.49 | 0.00 | 42.21 | 2.44 |
609 | 616 | 4.908601 | TTTGTGGAGGAGAAAGCTCATA | 57.091 | 40.909 | 0.00 | 0.00 | 43.14 | 2.15 |
614 | 621 | 2.105477 | GGAGGAGAAAGCTCATATGCCA | 59.895 | 50.000 | 0.00 | 0.00 | 43.14 | 4.92 |
646 | 655 | 1.854280 | AGAGAGGTAGGGGACGAAGAT | 59.146 | 52.381 | 0.00 | 0.00 | 0.00 | 2.40 |
656 | 665 | 2.151202 | GGGACGAAGATGTCAAAGCAA | 58.849 | 47.619 | 0.00 | 0.00 | 40.72 | 3.91 |
660 | 669 | 1.135972 | CGAAGATGTCAAAGCAACGGG | 60.136 | 52.381 | 0.00 | 0.00 | 0.00 | 5.28 |
698 | 707 | 3.817084 | CTGTGAAGTTGCATGGAGAGAAA | 59.183 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
712 | 721 | 2.364002 | GAGAGAAAGAGGATAAGCGGCT | 59.636 | 50.000 | 0.00 | 0.00 | 0.00 | 5.52 |
726 | 735 | 4.115199 | GGCTGGTGGGCCCTACAG | 62.115 | 72.222 | 30.54 | 30.54 | 45.92 | 2.74 |
747 | 756 | 2.514013 | CGTATGTTGCGCGAGGGAC | 61.514 | 63.158 | 12.10 | 2.06 | 0.00 | 4.46 |
771 | 780 | 4.183865 | CGGCTGATTTGTCTAGACATCAA | 58.816 | 43.478 | 25.68 | 18.02 | 41.52 | 2.57 |
773 | 782 | 4.937620 | GGCTGATTTGTCTAGACATCAACA | 59.062 | 41.667 | 25.68 | 19.72 | 41.52 | 3.33 |
790 | 799 | 6.603997 | ACATCAACAGGTTGGTTTAAACACTA | 59.396 | 34.615 | 19.57 | 3.17 | 40.78 | 2.74 |
791 | 800 | 7.122948 | ACATCAACAGGTTGGTTTAAACACTAA | 59.877 | 33.333 | 19.57 | 8.84 | 40.78 | 2.24 |
792 | 801 | 7.648039 | TCAACAGGTTGGTTTAAACACTAAT | 57.352 | 32.000 | 19.57 | 0.21 | 40.78 | 1.73 |
793 | 802 | 8.068892 | TCAACAGGTTGGTTTAAACACTAATT | 57.931 | 30.769 | 19.57 | 7.30 | 40.78 | 1.40 |
794 | 803 | 8.532819 | TCAACAGGTTGGTTTAAACACTAATTT | 58.467 | 29.630 | 19.57 | 2.25 | 40.78 | 1.82 |
796 | 805 | 9.727859 | AACAGGTTGGTTTAAACACTAATTTTT | 57.272 | 25.926 | 19.57 | 1.66 | 0.00 | 1.94 |
827 | 842 | 4.150980 | CGTAGCACGTTTCACTTTATGGAA | 59.849 | 41.667 | 0.00 | 0.00 | 36.74 | 3.53 |
840 | 855 | 6.205853 | TCACTTTATGGAATACACCACAACAC | 59.794 | 38.462 | 0.00 | 0.00 | 43.03 | 3.32 |
841 | 856 | 6.016693 | CACTTTATGGAATACACCACAACACA | 60.017 | 38.462 | 0.00 | 0.00 | 43.03 | 3.72 |
842 | 857 | 6.719370 | ACTTTATGGAATACACCACAACACAT | 59.281 | 34.615 | 0.00 | 0.00 | 43.03 | 3.21 |
844 | 859 | 8.815565 | TTTATGGAATACACCACAACACATAT | 57.184 | 30.769 | 0.00 | 0.00 | 43.03 | 1.78 |
991 | 1020 | 4.430765 | CAAGGGGACGGACGGACG | 62.431 | 72.222 | 0.00 | 0.00 | 40.31 | 4.79 |
1228 | 1259 | 7.753309 | TTTTGTCCCAAATCGAAATCTTCTA | 57.247 | 32.000 | 0.00 | 0.00 | 0.00 | 2.10 |
1420 | 1451 | 0.754957 | AGATGAGTCCGCCTCCTCAG | 60.755 | 60.000 | 7.84 | 0.00 | 40.77 | 3.35 |
1445 | 1476 | 1.466856 | TGATTTGCCAGATGCCACTC | 58.533 | 50.000 | 0.00 | 0.00 | 40.16 | 3.51 |
1468 | 1499 | 2.362503 | TCTGCGTCCGATCCCAGT | 60.363 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
1482 | 1513 | 0.322008 | CCCAGTCAGAAGCCTGGTTC | 60.322 | 60.000 | 5.09 | 0.91 | 45.61 | 3.62 |
1487 | 1518 | 1.531578 | GTCAGAAGCCTGGTTCGTTTC | 59.468 | 52.381 | 3.66 | 0.00 | 40.76 | 2.78 |
1491 | 1522 | 2.002018 | AAGCCTGGTTCGTTTCCCCA | 62.002 | 55.000 | 0.00 | 0.00 | 0.00 | 4.96 |
1552 | 2023 | 2.723124 | TTTCCTGATCTTTTTGCGCC | 57.277 | 45.000 | 4.18 | 0.00 | 0.00 | 6.53 |
1808 | 2279 | 5.505181 | AAGATCAGGTACATGTTCTTGGT | 57.495 | 39.130 | 25.23 | 7.34 | 37.67 | 3.67 |
2118 | 2589 | 1.912043 | CAGGGAGGGAGAATCACAAGT | 59.088 | 52.381 | 0.00 | 0.00 | 45.06 | 3.16 |
2133 | 2604 | 9.288576 | AGAATCACAAGTTTCATCTCAACAATA | 57.711 | 29.630 | 0.00 | 0.00 | 0.00 | 1.90 |
2162 | 2633 | 2.346766 | TGAGCTCCTTTCACTTGCAA | 57.653 | 45.000 | 12.15 | 0.00 | 0.00 | 4.08 |
2505 | 2984 | 4.767255 | GCTGCACGCTGCCCTAGT | 62.767 | 66.667 | 9.51 | 0.00 | 44.23 | 2.57 |
2605 | 3084 | 3.486108 | CGCGTATTGTCTTACAGATCACC | 59.514 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
2861 | 3374 | 9.410556 | ACTATTTGTTTATTCAAGTTGCATGAC | 57.589 | 29.630 | 0.00 | 0.00 | 0.00 | 3.06 |
2864 | 3377 | 5.771469 | TGTTTATTCAAGTTGCATGACAGG | 58.229 | 37.500 | 0.00 | 0.00 | 0.00 | 4.00 |
2896 | 3409 | 4.405756 | ACTCCCTCCGATCCATATTACT | 57.594 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
3007 | 3572 | 5.416952 | AGGCTTGAACTTTGGATAGTCATTG | 59.583 | 40.000 | 0.00 | 0.00 | 0.00 | 2.82 |
3054 | 3619 | 2.439409 | TGCAGCAATGCAGATTACACT | 58.561 | 42.857 | 8.35 | 0.00 | 40.23 | 3.55 |
3086 | 3651 | 8.136800 | GGTATTAGTGTTTAGGAGCTAGAACTC | 58.863 | 40.741 | 0.00 | 0.00 | 35.86 | 3.01 |
3109 | 3674 | 7.071698 | ACTCTGAGGCCTTTATAGATCAATTGA | 59.928 | 37.037 | 6.77 | 11.26 | 0.00 | 2.57 |
3176 | 3741 | 7.581213 | AATGTAAGACCATTTTTGACACTCA | 57.419 | 32.000 | 0.00 | 0.00 | 31.01 | 3.41 |
3177 | 3742 | 7.765695 | ATGTAAGACCATTTTTGACACTCAT | 57.234 | 32.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3178 | 3743 | 8.862325 | ATGTAAGACCATTTTTGACACTCATA | 57.138 | 30.769 | 0.00 | 0.00 | 0.00 | 2.15 |
3179 | 3744 | 8.094798 | TGTAAGACCATTTTTGACACTCATAC | 57.905 | 34.615 | 0.00 | 0.00 | 0.00 | 2.39 |
3180 | 3745 | 7.717436 | TGTAAGACCATTTTTGACACTCATACA | 59.283 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
3238 | 3803 | 9.950680 | TTTTCTGTTCTGACTAATCAATCAAAC | 57.049 | 29.630 | 0.00 | 0.00 | 33.30 | 2.93 |
3242 | 3807 | 8.853077 | TGTTCTGACTAATCAATCAAACTGAT | 57.147 | 30.769 | 0.00 | 0.00 | 39.09 | 2.90 |
3284 | 3849 | 1.562942 | TCTCTTCCTCCTGCATTGCAT | 59.437 | 47.619 | 12.53 | 0.00 | 38.13 | 3.96 |
3362 | 3927 | 4.667262 | TGTATATTGACACGCAAAATGCC | 58.333 | 39.130 | 0.00 | 0.00 | 41.12 | 4.40 |
3454 | 4019 | 8.986477 | ATCCTGTGTTGTTTCTTTTATATTGC | 57.014 | 30.769 | 0.00 | 0.00 | 0.00 | 3.56 |
3458 | 4023 | 9.409312 | CTGTGTTGTTTCTTTTATATTGCATGA | 57.591 | 29.630 | 0.00 | 0.00 | 0.00 | 3.07 |
3507 | 4072 | 4.640771 | TTTATGCAGGTGGTCTCTTCTT | 57.359 | 40.909 | 0.00 | 0.00 | 0.00 | 2.52 |
3765 | 4331 | 1.671261 | CCAGTTCTCAGCAAGACTCCG | 60.671 | 57.143 | 0.00 | 0.00 | 32.27 | 4.63 |
3834 | 4400 | 1.407575 | GGTAGCAAAGGAGCCTCTTCC | 60.408 | 57.143 | 0.00 | 0.00 | 37.52 | 3.46 |
3864 | 4430 | 3.561503 | GTTTATGAAACGGGTTGCAGAC | 58.438 | 45.455 | 0.00 | 0.00 | 30.39 | 3.51 |
3903 | 4469 | 4.727332 | TCAGGAGTAATCAGAGGAGACCTA | 59.273 | 45.833 | 0.00 | 0.00 | 31.76 | 3.08 |
3961 | 4527 | 5.163774 | GCAGGTGATCACTTCTTTTCATCTC | 60.164 | 44.000 | 24.50 | 3.98 | 27.14 | 2.75 |
4018 | 4584 | 6.762661 | TCTTTGATCGTATGAAATCTGCATGA | 59.237 | 34.615 | 0.00 | 0.00 | 0.00 | 3.07 |
4120 | 4686 | 3.332187 | TGATGATTTGTGTTGTAGGGGGA | 59.668 | 43.478 | 0.00 | 0.00 | 0.00 | 4.81 |
4276 | 4842 | 3.019564 | GCTAGCTTCATCACCCAACAAT | 58.980 | 45.455 | 7.70 | 0.00 | 0.00 | 2.71 |
4365 | 4931 | 7.800092 | AGATTAAGTCATGCTAACTCCTGATT | 58.200 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
4420 | 4986 | 7.778853 | ACAAATCATATGAAAGAAGCAGATCCT | 59.221 | 33.333 | 9.99 | 0.00 | 0.00 | 3.24 |
4547 | 5115 | 3.902261 | TCACATGTTTAGCAACAGCTG | 57.098 | 42.857 | 13.48 | 13.48 | 46.25 | 4.24 |
4560 | 5128 | 4.430137 | CAACAGCTGCACTTGATACATT | 57.570 | 40.909 | 15.27 | 0.00 | 0.00 | 2.71 |
4592 | 5160 | 7.210718 | ACTGGTTATTTGGTTAACTGTTAGC | 57.789 | 36.000 | 5.42 | 5.92 | 33.49 | 3.09 |
4593 | 5161 | 7.002276 | ACTGGTTATTTGGTTAACTGTTAGCT | 58.998 | 34.615 | 13.01 | 0.00 | 33.49 | 3.32 |
4594 | 5162 | 7.174426 | ACTGGTTATTTGGTTAACTGTTAGCTC | 59.826 | 37.037 | 13.01 | 5.49 | 33.49 | 4.09 |
4595 | 5163 | 6.148150 | TGGTTATTTGGTTAACTGTTAGCTCG | 59.852 | 38.462 | 13.01 | 0.00 | 33.49 | 5.03 |
4596 | 5164 | 6.369615 | GGTTATTTGGTTAACTGTTAGCTCGA | 59.630 | 38.462 | 13.01 | 2.68 | 33.49 | 4.04 |
4597 | 5165 | 7.095102 | GGTTATTTGGTTAACTGTTAGCTCGAA | 60.095 | 37.037 | 13.01 | 9.84 | 33.49 | 3.71 |
4598 | 5166 | 8.448615 | GTTATTTGGTTAACTGTTAGCTCGAAT | 58.551 | 33.333 | 13.01 | 14.54 | 0.00 | 3.34 |
4619 | 5187 | 3.791953 | TCTTAGATCCCTCTAGTCGGG | 57.208 | 52.381 | 12.08 | 12.08 | 43.38 | 5.14 |
4639 | 5207 | 9.618890 | AGTCGGGAAAATATTCATGATATATGG | 57.381 | 33.333 | 0.00 | 0.00 | 37.29 | 2.74 |
4684 | 5252 | 8.929827 | TTTAGTAGTGCTATTTACGTTATGCA | 57.070 | 30.769 | 0.00 | 0.00 | 0.00 | 3.96 |
4690 | 5258 | 5.783654 | GTGCTATTTACGTTATGCATAAGCG | 59.216 | 40.000 | 25.90 | 25.90 | 46.23 | 4.68 |
4809 | 5379 | 6.047511 | AGCATGTTATGACATCCCTATCTC | 57.952 | 41.667 | 0.00 | 0.00 | 44.55 | 2.75 |
5063 | 5634 | 6.521942 | GCCCCTCTATTTTCCGATTAAGGTAT | 60.522 | 42.308 | 0.00 | 0.00 | 0.00 | 2.73 |
5078 | 5649 | 4.634012 | AAGGTATGGTGTTTCTGTGCTA | 57.366 | 40.909 | 0.00 | 0.00 | 0.00 | 3.49 |
5085 | 5656 | 9.284968 | GGTATGGTGTTTCTGTGCTATATAAAT | 57.715 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
5136 | 5708 | 4.556104 | GCCATATGATTGCTAACTGCTGTG | 60.556 | 45.833 | 3.65 | 0.00 | 43.37 | 3.66 |
5346 | 5918 | 7.757097 | TCTAATAACTCAAAAGATCAGTCGC | 57.243 | 36.000 | 0.00 | 0.00 | 0.00 | 5.19 |
5375 | 5947 | 3.129813 | TGCTTGGTACACCATCTAGTACG | 59.870 | 47.826 | 1.05 | 0.00 | 46.97 | 3.67 |
5460 | 6032 | 3.761218 | TCAAGAACAAGTTCCTGCAAACA | 59.239 | 39.130 | 9.20 | 0.00 | 40.33 | 2.83 |
5693 | 6266 | 2.027192 | TGTGAAGTGACCTCTATTGCCC | 60.027 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
5801 | 6374 | 0.179037 | GCAGCCAGCTCATACATCCA | 60.179 | 55.000 | 0.00 | 0.00 | 41.15 | 3.41 |
6082 | 6655 | 4.036027 | GGTAATCCTTGTGCTGATGATGTG | 59.964 | 45.833 | 0.00 | 0.00 | 0.00 | 3.21 |
6165 | 6738 | 3.222173 | AGATCAGCCTCTAGATGACGT | 57.778 | 47.619 | 0.00 | 0.00 | 0.00 | 4.34 |
6259 | 6832 | 7.526608 | TGCCGAGACTTACATTTTTATCTTTG | 58.473 | 34.615 | 0.00 | 0.00 | 0.00 | 2.77 |
6736 | 7311 | 2.622942 | TGTGAAATGAGCTTGGGTCAAC | 59.377 | 45.455 | 3.59 | 0.00 | 43.29 | 3.18 |
6878 | 7453 | 8.819974 | CATAAATCAATGTGTTTATTTGAGGGC | 58.180 | 33.333 | 4.54 | 0.00 | 30.32 | 5.19 |
6940 | 7515 | 4.202151 | GGGTCAATGTTTTAGATGGATGGC | 60.202 | 45.833 | 0.00 | 0.00 | 0.00 | 4.40 |
6981 | 7556 | 2.285083 | CCATCGAATCAAAGCCGGTTA | 58.715 | 47.619 | 1.90 | 0.00 | 0.00 | 2.85 |
7061 | 7636 | 8.608598 | AGCTAAAAGGTAGGTTTTTATAGGACA | 58.391 | 33.333 | 0.00 | 0.00 | 31.66 | 4.02 |
7170 | 7791 | 5.474532 | CCACAAAAGAAAGGATCAGACATGA | 59.525 | 40.000 | 0.00 | 0.00 | 40.50 | 3.07 |
7216 | 7837 | 6.775629 | AGTTGAGGTAGCACCAATTTAAAGAA | 59.224 | 34.615 | 7.86 | 0.00 | 41.95 | 2.52 |
7259 | 7903 | 4.022416 | TGAGTTGGTTTGGACATATGCAAC | 60.022 | 41.667 | 1.58 | 7.25 | 35.65 | 4.17 |
7273 | 7917 | 3.855689 | ATGCAACACAAGCCTTCATAC | 57.144 | 42.857 | 0.00 | 0.00 | 0.00 | 2.39 |
7305 | 7949 | 0.168128 | AGCGAATGGTTAAAGCGTGC | 59.832 | 50.000 | 0.00 | 0.00 | 0.00 | 5.34 |
7315 | 7959 | 4.457603 | TGGTTAAAGCGTGCTGATAATGTT | 59.542 | 37.500 | 0.00 | 0.00 | 0.00 | 2.71 |
7316 | 7960 | 5.048364 | TGGTTAAAGCGTGCTGATAATGTTT | 60.048 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
7338 | 7982 | 1.273098 | ACAGAGGTCGGGGTCAACTAT | 60.273 | 52.381 | 0.00 | 0.00 | 0.00 | 2.12 |
7379 | 8023 | 3.454812 | GGCCCCTTCTAGATAGTTTGTGA | 59.545 | 47.826 | 0.00 | 0.00 | 0.00 | 3.58 |
7455 | 8101 | 0.935942 | TTGGCATCAATCCATCCCCT | 59.064 | 50.000 | 0.00 | 0.00 | 32.92 | 4.79 |
7583 | 8235 | 9.950680 | ATTAATTGAGTAAACTTTGACACACAG | 57.049 | 29.630 | 0.00 | 0.00 | 0.00 | 3.66 |
7735 | 8418 | 7.602644 | TCTGTTGAAATATTCGCTTCTACAGTT | 59.397 | 33.333 | 19.64 | 0.00 | 46.42 | 3.16 |
7736 | 8419 | 7.739295 | TGTTGAAATATTCGCTTCTACAGTTC | 58.261 | 34.615 | 0.00 | 0.00 | 34.06 | 3.01 |
7737 | 8420 | 7.386573 | TGTTGAAATATTCGCTTCTACAGTTCA | 59.613 | 33.333 | 0.00 | 0.00 | 34.06 | 3.18 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 6.327104 | TGGATATTTCAAATGAATCCAAGGGG | 59.673 | 38.462 | 10.97 | 0.00 | 37.62 | 4.79 |
23 | 24 | 6.619874 | GCAAGCATCAAGTTCATCAAAAATGG | 60.620 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
126 | 127 | 1.187974 | ATCATGTGTGGGTGCAATGG | 58.812 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
226 | 229 | 8.583810 | AAATCATCATGTGCAATAGTAAATGC | 57.416 | 30.769 | 0.00 | 4.74 | 42.86 | 3.56 |
233 | 236 | 9.923143 | ATCCATTAAAATCATCATGTGCAATAG | 57.077 | 29.630 | 0.00 | 0.00 | 0.00 | 1.73 |
246 | 249 | 9.642327 | GCACATGCATAATATCCATTAAAATCA | 57.358 | 29.630 | 0.00 | 0.00 | 41.59 | 2.57 |
247 | 250 | 9.865321 | AGCACATGCATAATATCCATTAAAATC | 57.135 | 29.630 | 6.64 | 0.00 | 45.16 | 2.17 |
249 | 252 | 9.478768 | CAAGCACATGCATAATATCCATTAAAA | 57.521 | 29.630 | 6.64 | 0.00 | 45.16 | 1.52 |
250 | 253 | 7.599621 | GCAAGCACATGCATAATATCCATTAAA | 59.400 | 33.333 | 6.64 | 0.00 | 45.70 | 1.52 |
251 | 254 | 7.092079 | GCAAGCACATGCATAATATCCATTAA | 58.908 | 34.615 | 6.64 | 0.00 | 45.70 | 1.40 |
252 | 255 | 6.623486 | GCAAGCACATGCATAATATCCATTA | 58.377 | 36.000 | 6.64 | 0.00 | 45.70 | 1.90 |
253 | 256 | 5.475719 | GCAAGCACATGCATAATATCCATT | 58.524 | 37.500 | 6.64 | 0.00 | 45.70 | 3.16 |
254 | 257 | 5.068234 | GCAAGCACATGCATAATATCCAT | 57.932 | 39.130 | 6.64 | 0.00 | 45.70 | 3.41 |
255 | 258 | 4.508461 | GCAAGCACATGCATAATATCCA | 57.492 | 40.909 | 6.64 | 0.00 | 45.70 | 3.41 |
294 | 297 | 6.128391 | TGTGGTTCTTGTCTCGTAATAATTGC | 60.128 | 38.462 | 0.00 | 0.00 | 0.00 | 3.56 |
295 | 298 | 7.359262 | TGTGGTTCTTGTCTCGTAATAATTG | 57.641 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
296 | 299 | 8.041323 | AGATGTGGTTCTTGTCTCGTAATAATT | 58.959 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
297 | 300 | 7.556844 | AGATGTGGTTCTTGTCTCGTAATAAT | 58.443 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
299 | 302 | 6.525578 | AGATGTGGTTCTTGTCTCGTAATA | 57.474 | 37.500 | 0.00 | 0.00 | 0.00 | 0.98 |
300 | 303 | 5.407407 | AGATGTGGTTCTTGTCTCGTAAT | 57.593 | 39.130 | 0.00 | 0.00 | 0.00 | 1.89 |
301 | 304 | 4.866508 | AGATGTGGTTCTTGTCTCGTAA | 57.133 | 40.909 | 0.00 | 0.00 | 0.00 | 3.18 |
302 | 305 | 4.279922 | TGAAGATGTGGTTCTTGTCTCGTA | 59.720 | 41.667 | 0.00 | 0.00 | 36.10 | 3.43 |
303 | 306 | 3.069586 | TGAAGATGTGGTTCTTGTCTCGT | 59.930 | 43.478 | 0.00 | 0.00 | 36.10 | 4.18 |
304 | 307 | 3.430218 | GTGAAGATGTGGTTCTTGTCTCG | 59.570 | 47.826 | 0.00 | 0.00 | 36.10 | 4.04 |
311 | 314 | 1.630878 | GAGGGGTGAAGATGTGGTTCT | 59.369 | 52.381 | 0.00 | 0.00 | 0.00 | 3.01 |
415 | 420 | 0.541392 | ATGCTACAATGTCCGCCTGA | 59.459 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
425 | 430 | 1.666209 | GGCGTTGCCCATGCTACAAT | 61.666 | 55.000 | 0.00 | 0.00 | 44.06 | 2.71 |
463 | 468 | 1.300931 | GCTCGCCAGTGTTGTGAGA | 60.301 | 57.895 | 12.48 | 0.00 | 30.53 | 3.27 |
467 | 472 | 3.537206 | GAGGGCTCGCCAGTGTTGT | 62.537 | 63.158 | 10.51 | 0.00 | 37.98 | 3.32 |
470 | 475 | 4.008933 | GTGAGGGCTCGCCAGTGT | 62.009 | 66.667 | 10.51 | 0.00 | 37.98 | 3.55 |
522 | 527 | 2.502510 | CAACGCAGCGTGATTGGC | 60.503 | 61.111 | 23.78 | 0.00 | 39.99 | 4.52 |
533 | 538 | 3.276091 | CCTCGGTGTTGCAACGCA | 61.276 | 61.111 | 36.23 | 20.88 | 44.89 | 5.24 |
549 | 554 | 2.111878 | CCACCATCTCATCCCGCC | 59.888 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
551 | 556 | 0.462581 | CACACCACCATCTCATCCCG | 60.463 | 60.000 | 0.00 | 0.00 | 0.00 | 5.14 |
552 | 557 | 0.107017 | CCACACCACCATCTCATCCC | 60.107 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
555 | 560 | 0.549902 | TCCCCACACCACCATCTCAT | 60.550 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
590 | 597 | 3.432749 | GCATATGAGCTTTCTCCTCCACA | 60.433 | 47.826 | 6.97 | 0.00 | 38.58 | 4.17 |
591 | 598 | 3.137533 | GCATATGAGCTTTCTCCTCCAC | 58.862 | 50.000 | 6.97 | 0.00 | 38.58 | 4.02 |
609 | 616 | 4.286549 | CCTCTCTCTAATGGATCTTGGCAT | 59.713 | 45.833 | 0.00 | 0.00 | 0.00 | 4.40 |
614 | 621 | 5.460423 | CCCCTACCTCTCTCTAATGGATCTT | 60.460 | 48.000 | 0.00 | 0.00 | 0.00 | 2.40 |
646 | 655 | 1.228124 | CCTCCCCGTTGCTTTGACA | 60.228 | 57.895 | 0.00 | 0.00 | 0.00 | 3.58 |
656 | 665 | 1.409661 | GCCACATATTTTCCTCCCCGT | 60.410 | 52.381 | 0.00 | 0.00 | 0.00 | 5.28 |
660 | 669 | 3.620488 | TCACAGCCACATATTTTCCTCC | 58.380 | 45.455 | 0.00 | 0.00 | 0.00 | 4.30 |
698 | 707 | 1.690219 | CCACCAGCCGCTTATCCTCT | 61.690 | 60.000 | 0.00 | 0.00 | 0.00 | 3.69 |
712 | 721 | 2.609610 | GTCCTGTAGGGCCCACCA | 60.610 | 66.667 | 27.56 | 18.90 | 43.89 | 4.17 |
726 | 735 | 2.514013 | CCTCGCGCAACATACGTCC | 61.514 | 63.158 | 8.75 | 0.00 | 0.00 | 4.79 |
747 | 756 | 0.924090 | GTCTAGACAAATCAGCCGCG | 59.076 | 55.000 | 18.20 | 0.00 | 0.00 | 6.46 |
790 | 799 | 5.739237 | CGTGCTACGCAACAATAAAAATT | 57.261 | 34.783 | 0.00 | 0.00 | 41.47 | 1.82 |
817 | 832 | 6.065374 | TGTGTTGTGGTGTATTCCATAAAGT | 58.935 | 36.000 | 0.00 | 0.00 | 39.54 | 2.66 |
821 | 836 | 9.500785 | CATATATGTGTTGTGGTGTATTCCATA | 57.499 | 33.333 | 4.43 | 0.00 | 39.81 | 2.74 |
827 | 842 | 6.828273 | AGTTGCATATATGTGTTGTGGTGTAT | 59.172 | 34.615 | 14.14 | 0.00 | 0.00 | 2.29 |
997 | 1026 | 3.988050 | TATTGGACCCTCGGCCGGT | 62.988 | 63.158 | 27.83 | 16.15 | 35.88 | 5.28 |
1000 | 1029 | 2.509422 | GGTATTGGACCCTCGGCC | 59.491 | 66.667 | 0.00 | 0.00 | 43.25 | 6.13 |
1420 | 1451 | 1.738030 | GCATCTGGCAAATCAACAGGC | 60.738 | 52.381 | 0.00 | 0.00 | 43.97 | 4.85 |
1468 | 1499 | 1.542547 | GGAAACGAACCAGGCTTCTGA | 60.543 | 52.381 | 0.00 | 0.00 | 40.86 | 3.27 |
1482 | 1513 | 0.955905 | AACGAAATGGTGGGGAAACG | 59.044 | 50.000 | 0.00 | 0.00 | 0.00 | 3.60 |
1487 | 1518 | 1.680989 | GGGGAACGAAATGGTGGGG | 60.681 | 63.158 | 0.00 | 0.00 | 0.00 | 4.96 |
1491 | 1522 | 1.905637 | GTTCAGGGGAACGAAATGGT | 58.094 | 50.000 | 0.00 | 0.00 | 43.54 | 3.55 |
1552 | 2023 | 6.690098 | CCTTTTTCGCTATCAAGATGAACATG | 59.310 | 38.462 | 0.00 | 0.00 | 0.00 | 3.21 |
2015 | 2486 | 3.630625 | AGGGGATAGTGGTGCTATGTA | 57.369 | 47.619 | 0.00 | 0.00 | 40.30 | 2.29 |
2133 | 2604 | 4.639310 | GTGAAAGGAGCTCATCATCATTGT | 59.361 | 41.667 | 17.19 | 0.00 | 0.00 | 2.71 |
2162 | 2633 | 0.042131 | TGTAAGGAGGGGACATCGGT | 59.958 | 55.000 | 0.00 | 0.00 | 0.00 | 4.69 |
2505 | 2984 | 2.573369 | TGGCCAGTTTAACACGCTTTA | 58.427 | 42.857 | 0.00 | 0.00 | 0.00 | 1.85 |
2896 | 3409 | 5.079689 | TCCATATTACTTGTCGCTCACAA | 57.920 | 39.130 | 0.00 | 0.00 | 43.12 | 3.33 |
3007 | 3572 | 7.900782 | ATATACCGCATGATTTGTAGGTTAC | 57.099 | 36.000 | 0.00 | 0.00 | 38.68 | 2.50 |
3054 | 3619 | 5.104652 | GCTCCTAAACACTAATACCCCAGAA | 60.105 | 44.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3086 | 3651 | 7.222872 | ACTCAATTGATCTATAAAGGCCTCAG | 58.777 | 38.462 | 5.23 | 0.97 | 0.00 | 3.35 |
3175 | 3740 | 4.202441 | CTCCCTCTGTCCCAAAATGTATG | 58.798 | 47.826 | 0.00 | 0.00 | 0.00 | 2.39 |
3176 | 3741 | 3.852578 | ACTCCCTCTGTCCCAAAATGTAT | 59.147 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
3177 | 3742 | 3.256704 | ACTCCCTCTGTCCCAAAATGTA | 58.743 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
3178 | 3743 | 2.065799 | ACTCCCTCTGTCCCAAAATGT | 58.934 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
3179 | 3744 | 2.887151 | ACTCCCTCTGTCCCAAAATG | 57.113 | 50.000 | 0.00 | 0.00 | 0.00 | 2.32 |
3180 | 3745 | 5.491078 | TGTAATACTCCCTCTGTCCCAAAAT | 59.509 | 40.000 | 0.00 | 0.00 | 0.00 | 1.82 |
3284 | 3849 | 9.976776 | TCCACACCCAGTTATTGTTATTAATTA | 57.023 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
3469 | 4034 | 8.491152 | CCTGCATAAAACTCAGTTATTATCTCG | 58.509 | 37.037 | 0.00 | 0.00 | 0.00 | 4.04 |
3476 | 4041 | 5.570320 | ACCACCTGCATAAAACTCAGTTAT | 58.430 | 37.500 | 0.00 | 0.00 | 0.00 | 1.89 |
3507 | 4072 | 3.415212 | AGCACTGCAGCTAAATTTCTCA | 58.585 | 40.909 | 15.27 | 0.00 | 44.50 | 3.27 |
3684 | 4250 | 5.986004 | TTCTTCTCGTTCTTTTTCTGTCC | 57.014 | 39.130 | 0.00 | 0.00 | 0.00 | 4.02 |
3765 | 4331 | 4.035675 | CCTACTGCGAAAGATTGATTTCCC | 59.964 | 45.833 | 0.00 | 0.00 | 36.08 | 3.97 |
3813 | 4379 | 1.279271 | GAAGAGGCTCCTTTGCTACCA | 59.721 | 52.381 | 11.71 | 0.00 | 0.00 | 3.25 |
3864 | 4430 | 6.301169 | ACTCCTGACTTGTTAGAATTAGGG | 57.699 | 41.667 | 0.00 | 0.00 | 0.00 | 3.53 |
3961 | 4527 | 9.160496 | GAGGCTAAGGATACATCATATCAAAAG | 57.840 | 37.037 | 0.00 | 0.00 | 41.41 | 2.27 |
4073 | 4639 | 7.227314 | CAGCTATCAACACTAATGCAAGGAATA | 59.773 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
4276 | 4842 | 9.378551 | GAAACAATACCATCAACAGTAGATACA | 57.621 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
4388 | 4954 | 7.560991 | TGCTTCTTTCATATGATTTGTACCCAT | 59.439 | 33.333 | 6.17 | 0.00 | 0.00 | 4.00 |
4393 | 4959 | 9.060347 | GGATCTGCTTCTTTCATATGATTTGTA | 57.940 | 33.333 | 6.17 | 0.00 | 0.00 | 2.41 |
4517 | 5083 | 7.010923 | TGTTGCTAAACATGTGATTGGTTTTTC | 59.989 | 33.333 | 0.00 | 0.00 | 41.41 | 2.29 |
4547 | 5115 | 9.326413 | ACCAGTAATAACTAATGTATCAAGTGC | 57.674 | 33.333 | 0.00 | 0.00 | 33.48 | 4.40 |
4592 | 5160 | 6.128391 | CGACTAGAGGGATCTAAGAATTCGAG | 60.128 | 46.154 | 0.00 | 2.01 | 0.00 | 4.04 |
4593 | 5161 | 5.701750 | CGACTAGAGGGATCTAAGAATTCGA | 59.298 | 44.000 | 0.00 | 0.00 | 0.00 | 3.71 |
4594 | 5162 | 5.106475 | CCGACTAGAGGGATCTAAGAATTCG | 60.106 | 48.000 | 0.00 | 0.00 | 0.00 | 3.34 |
4595 | 5163 | 6.262193 | CCGACTAGAGGGATCTAAGAATTC | 57.738 | 45.833 | 0.00 | 0.00 | 0.00 | 2.17 |
4677 | 5245 | 4.856487 | TGCAGAAAAACGCTTATGCATAAC | 59.144 | 37.500 | 15.21 | 11.06 | 45.79 | 1.89 |
4680 | 5248 | 3.574284 | TGCAGAAAAACGCTTATGCAT | 57.426 | 38.095 | 3.79 | 3.79 | 45.79 | 3.96 |
4684 | 5252 | 2.228822 | CCCACTGCAGAAAAACGCTTAT | 59.771 | 45.455 | 23.35 | 0.00 | 0.00 | 1.73 |
4809 | 5379 | 8.985922 | TGGATTATGATCATCCTGTTATAGAGG | 58.014 | 37.037 | 12.53 | 0.00 | 40.99 | 3.69 |
5003 | 5574 | 0.399454 | AGACATCAGCCACTGCAACT | 59.601 | 50.000 | 0.00 | 0.00 | 41.13 | 3.16 |
5085 | 5656 | 7.723324 | GCCACTAATGGTCTAGAACATTACTA | 58.277 | 38.462 | 30.81 | 18.29 | 46.06 | 1.82 |
5086 | 5657 | 6.583562 | GCCACTAATGGTCTAGAACATTACT | 58.416 | 40.000 | 30.81 | 22.06 | 46.06 | 2.24 |
5087 | 5658 | 6.846325 | GCCACTAATGGTCTAGAACATTAC | 57.154 | 41.667 | 30.81 | 20.64 | 46.06 | 1.89 |
5136 | 5708 | 6.921307 | CCATACCTTACCAACAAAAAGTTCAC | 59.079 | 38.462 | 0.00 | 0.00 | 38.74 | 3.18 |
5460 | 6032 | 5.478332 | CAGGAATAAGGACCTCAAAAGCTTT | 59.522 | 40.000 | 5.69 | 5.69 | 33.91 | 3.51 |
5693 | 6266 | 7.192232 | GGATTCTCATCGAAAAGAGGATTTTG | 58.808 | 38.462 | 11.45 | 0.00 | 39.12 | 2.44 |
6082 | 6655 | 4.301628 | CACAAAGTTCTTCCATTGCCTTC | 58.698 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
6165 | 6738 | 5.279809 | GGGCATTCGTCTAATACCCAGAATA | 60.280 | 44.000 | 1.23 | 0.00 | 46.94 | 1.75 |
6259 | 6832 | 2.217429 | TTCGGGCTGCAAAAAGAAAC | 57.783 | 45.000 | 0.50 | 0.00 | 0.00 | 2.78 |
6308 | 6881 | 5.158141 | TCATCAGCTAGGGATCTTATTGGT | 58.842 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
6593 | 7166 | 0.518636 | CAACAACATGCGTCCCTCTG | 59.481 | 55.000 | 0.00 | 0.00 | 0.00 | 3.35 |
6940 | 7515 | 6.908870 | TGGTTCTTATCTTCATCAACATCG | 57.091 | 37.500 | 0.00 | 0.00 | 0.00 | 3.84 |
6981 | 7556 | 2.770164 | AACTTAGCGCCACTTCATCT | 57.230 | 45.000 | 2.29 | 0.00 | 0.00 | 2.90 |
7053 | 7628 | 3.250280 | GTGAGTCGAATCGCTGTCCTATA | 59.750 | 47.826 | 18.42 | 0.00 | 0.00 | 1.31 |
7061 | 7636 | 2.370281 | ACATTGTGAGTCGAATCGCT | 57.630 | 45.000 | 24.71 | 5.23 | 0.00 | 4.93 |
7117 | 7738 | 1.133598 | CCATCGCAACATGCACATCTT | 59.866 | 47.619 | 2.99 | 0.00 | 45.36 | 2.40 |
7170 | 7791 | 7.549134 | TCAACTCTCTTGCGTATATCAACATTT | 59.451 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
7186 | 7807 | 2.609747 | TGGTGCTACCTCAACTCTCTT | 58.390 | 47.619 | 6.83 | 0.00 | 39.58 | 2.85 |
7216 | 7837 | 8.517878 | CAACTCAGATGATGTTGGATAAACTTT | 58.482 | 33.333 | 13.08 | 0.00 | 39.70 | 2.66 |
7233 | 7854 | 4.641989 | GCATATGTCCAAACCAACTCAGAT | 59.358 | 41.667 | 4.29 | 0.00 | 0.00 | 2.90 |
7292 | 7936 | 4.006989 | ACATTATCAGCACGCTTTAACCA | 58.993 | 39.130 | 0.00 | 0.00 | 0.00 | 3.67 |
7305 | 7949 | 5.523916 | CCCGACCTCTGTTAAACATTATCAG | 59.476 | 44.000 | 0.00 | 3.03 | 0.00 | 2.90 |
7315 | 7959 | 1.345415 | GTTGACCCCGACCTCTGTTAA | 59.655 | 52.381 | 0.00 | 0.00 | 0.00 | 2.01 |
7316 | 7960 | 0.971386 | GTTGACCCCGACCTCTGTTA | 59.029 | 55.000 | 0.00 | 0.00 | 0.00 | 2.41 |
7338 | 7982 | 2.163412 | GCCTTGGTTACGATGCATTTCA | 59.837 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
7395 | 8039 | 1.852633 | AAAACAGCTTATGGCCTCCC | 58.147 | 50.000 | 3.32 | 0.00 | 43.05 | 4.30 |
7583 | 8235 | 2.719426 | AGTACCTCGTGTTAGTGTGC | 57.281 | 50.000 | 0.00 | 0.00 | 0.00 | 4.57 |
7735 | 8418 | 5.073428 | ACTCTATATCGGTGCTCTCAATGA | 58.927 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
7736 | 8419 | 5.384063 | ACTCTATATCGGTGCTCTCAATG | 57.616 | 43.478 | 0.00 | 0.00 | 0.00 | 2.82 |
7737 | 8420 | 4.461081 | GGACTCTATATCGGTGCTCTCAAT | 59.539 | 45.833 | 0.00 | 0.00 | 0.00 | 2.57 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.